YRC Public Data Repository - Protein Structure Prediction

Protein:	SYK2_ECOLI
Organism:	Escherichia coli
Length:	504 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for SYK2_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|77974514, gi\|... - gi\|77974514\|ref\|ZP_00830054.1\| COG1190: Lysyl-tRNA synthetase (class II) [Yersinia frederiksenii ATC...	558.0	[0..1]	[504..2]
gi\|194423804, gi... - gi\|83587253\|ref\|ZP_00925882.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli 101-1], g... gi\|254290812, gi... - gi\|254290812\|ref\|YP_003056560.1\| lysine tRNA synthetase, inducible [Escherichia coli BL21(DE3)], gi\|... gi\|251787383, gi... - gi\|251787383\|ref\|YP_003001687.1\| hypothetical protein B21_03962 [Escherichia coli BL21], gi\|24237965... gi\|253975963, gi... - gi\|254164062\|ref\|YP_003047170.1\| lysine tRNA synthetase, inducible [Escherichia coli B str. REL606],...	557.0	[0..1]	[504..2]
SYK2_ECOLI - Lysyl-tRNA synthetase, heat inducible (EC 6.1.1.6) (Lysine--tRNA ligase) (LysRS) - Escherichia coli SYK2_ECO57 - Lysine--tRNA ligase, heat inducible OS=Escherichia coli O157:H7 GN=lysU PE=3 SV=2 EG10553 - lysine tRNA synthetase, inducible / Lysine--tRNA ligase, heat inducible; Ap4A and Ap3A synthase gi\|15804722, gi\|... - gi\|15804722\|ref\|NP_290763.1\| lysyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|12519106\|gb... gi\|15834365, gi\|... - gi\|15834365\|ref\|NP_313138.1\| lysyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|1336458... gi\|238861695, gi... - gi\|238903238\|ref\|YP_002929034.1\| lysine tRNA synthetase, inducible [Escherichia coli BW2952], gi\|238... gi\|254796152, gi... - gi\|254796152\|ref\|YP_003080989.1\| lysine tRNA synthetase, inducible [Escherichia coli O157:H7 str. TW... gi\|170083579, gi... - gi\|170083579\|ref\|YP_001732899.1\| lysine tRNA synthetase, inducible [Escherichia coli str. K-12 subst... gi\|189379164, gi... - gi\|189379164\|gb\|EDU97580.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC508], gi\|168... gi\|208726904, gi... - gi\|208807103\|ref\|ZP_03249440.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4206], g... EG10553 - lysine tRNA synthetase, inducible / Lysine--tRNA ligase, heat inducible; Ap4A and Ap3A synthase gi\|195935919 - gi\|195935919\|ref\|ZP_03081301.1\| lysyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4024] gi\|208819932, gi... - gi\|208819932\|ref\|ZP_03260252.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4042], g... gi\|208735239, gi... - gi\|208813962\|ref\|ZP_03255291.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4045], g... gi\|209921620, gi... - gi\|209921620\|ref\|YP_002295704.1\| lysyl-tRNA synthetase [Escherichia coli SE11], gi\|209914879\|dbj\|BAG... gi\|209162047, gi... - gi\|209400647\|ref\|YP_002273676.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4115], ... gi\|188017408, gi... - gi\|188017408\|gb\|EDU55530.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4113], gi\|16... gi\|168760993, gi... - gi\|189368520\|gb\|EDU86936.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4501], gi\|16... gi\|168755314, gi... - gi\|189357458\|gb\|EDU75877.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4401], gi\|16... gi\|168774502, gi... - gi\|187769884\|gb\|EDU33728.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4196], gi\|16... gi\|168766403, gi... - gi\|189364021\|gb\|EDU82440.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4486], gi\|16... gi\|189375037, gi... - gi\|189375037\|gb\|EDU93453.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC869], gi\|168... gi\|189001831, gi... - gi\|189001831\|gb\|EDU70817.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. EC4076], gi\|16... gi\|89110851, gi\|... - gi\|89110851\|ref\|AP_004631.1\| lysine tRNA synthetase, inducible [Escherichia coli str. K-12 substr. W... gi\|218363451, gi... - gi\|218556682\|ref\|YP_002389596.1\| lysyl-tRNA synthetase [Escherichia coli IAI1], gi\|218363451\|emb\|CAR... gi\|188488978, gi... - gi\|75514889\|ref\|ZP_00737118.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli 53638], g... gi\|217326188, gi... - gi\|217326188\|ref\|ZP_03442272.1\| lysyl-tRNA synthetase LysU [Escherichia coli O157:H7 str. TW14588], ... gi\|192931307, gi... - gi\|75259047\|ref\|ZP_00730415.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli E22], gi\|... gi\|75212057, gi\|... - gi\|75212057\|ref\|ZP_00712112.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli B171], gi... gi\|218697832, gi... - gi\|218697832\|ref\|YP_002405499.1\| lysyl-tRNA synthetase [Escherichia coli 55989], gi\|218354564\|emb\|CA... gi\|157069275, gi... - gi\|75197980\|ref\|ZP_00708050.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli HS], gi\|1...	557.0	[0..1]	[504..2]
gi\|75188845, gi\|... - gi\|75188845\|ref\|ZP_00702112.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli E24377A],... gi\|170021873, gi... - gi\|170021873\|ref\|YP_001726827.1\| lysyl-tRNA synthetase [Escherichia coli ATCC 8739], gi\|169756801\|gb... gi\|124527768, gi... - gi\|124527768\|ref\|ZP_01699203.1\| lysyl-tRNA synthetase [Escherichia coli B], gi\|124501211\|gb\|EAY48677...	557.0	[0..1]	[504..2]
gi\|74314615, gi\|... - gi\|74314615\|ref\|YP_313034.1\| lysyl-tRNA synthetase [Shigella sonnei Ss046], gi\|73858092\|gb\|AAZ90799....	557.0	[0..1]	[504..2]
gi\|75238657, gi\|... - gi\|75238657\|ref\|ZP_00722646.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli E110019],...	555.0	[0..1]	[504..2]
gi\|26250946, gi\|... - gi\|26250946\|ref\|NP_756986.1\| lysyl-tRNA synthetase [Escherichia coli CFT073], gi\|26111378\|gb\|AAN8356... gi\|226901632, gi... - gi\|237703720\|ref\|ZP_04534201.1\| lysyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|226901632\|gb\|E... gi\|91075253, gi\|... - gi\|91213679\|ref\|YP_543665.1\| lysyl-tRNA synthetase, heat inducible [Escherichia coli UTI89], gi\|9107...	555.0	[0..1]	[504..11]
SYK2_ECOL6 - Lysine--tRNA ligase, heat inducible OS=Escherichia coli O6 GN=lysU PE=3 SV=3 gi\|162138308 - gi\|162138308\|ref\|YP_543665.2\| lysyl-tRNA synthetase [Escherichia coli UTI89] gi\|117626414, gi... - gi\|117626414\|ref\|YP_859737.1\| lysyl-tRNA synthetase [Escherichia coli APEC O1], gi\|115515538\|gb\|ABJ0... SYK2_ECOL6 - Lysine--tRNA ligase, heat inducible OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) G... gi\|227886830, gi... - gi\|227886830\|ref\|ZP_04004635.1\| lysine--tRNA ligase [Escherichia coli 83972], gi\|227836172\|gb\|EEJ466... gi\|218434842, gi... - gi\|218707745\|ref\|YP_002415264.1\| lysyl-tRNA synthetase [Escherichia coli UMN026], gi\|218434842\|emb\|C... gi\|218367986, gi... - gi\|218561217\|ref\|YP_002394130.1\| lysyl-tRNA synthetase [Escherichia coli S88], gi\|218367986\|emb\|CAR0...	555.0	[0..1]	[504..2]
gi\|191165676, gi... - gi\|75231274\|ref\|ZP_00717681.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli B7A], gi\|...	554.0	[0..1]	[504..2]
gi\|190906366, gi... - gi\|75239099\|ref\|ZP_00723079.1\| COG1190: Lysyl-tRNA synthetase (class II) [Escherichia coli F11], gi\|... gi\|218692425, gi... - gi\|218692425\|ref\|YP_002400637.1\| lysyl-tRNA synthetase [Escherichia coli ED1a], gi\|218429989\|emb\|CAR... gi\|110644488, gi... - gi\|110644488\|ref\|YP_672218.1\| lysyl-tRNA synthetase [Escherichia coli 536], gi\|110346080\|gb\|ABG72317...	553.0	[0..1]	[504..2]

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Predicted Domain #1

Region A:
Residues: [1-504]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SEQETRGANE AIDFNDELRN RREKLAALRQ QGVAFPNDFR RDHTSDQLHE EFDAKDNQEL  60
   61 ESLNIEVSVA GRMMTRRIMG KASFVTLQDV GGRIQLYVAR DSLPEGVYND QFKKWDLGDI 120
  121 IGARGTLFKT QTGELSIHCT ELRLLTKALR PLPDKFHGLQ DQEVRYRQRY LDLIANDKSR 180
  181 QTFVVRSKIL AAIRQFMVAR GFMEVETPMM QVIPGGASAR PFITHHNALD LDMYLRIAPE 240
  241 LYLKRLVVGG FERVFEINRN FRNEGISVRH NPEFTMMELY MAYADYHDLI ELTESLFRTL 300
  301 AQEVLGTTKV TYGEHVFDFG KPFEKLTMRE AIKKYRPETD MADLDNFDAA KALAESIGIT 360
  361 VEKSWGLGRI VTEIFDEVAE AHLIQPTFIT EYPAEVSPLA RRNDVNPEIT DRFEFFIGGR 420
  421 EIGNGFSELN DAEDQAERFQ EQVNAKAAGD DEAMFYDEDY VTALEYGLPP TAGLGIGIDR 480
  481 MIMLFTNSHT IRDVILFPAM RPQK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	159.0
Match:	1e1oA
Description:	Lysyl-tRNA synthetase (LysRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
lysine-tRNA ligase activity	11.0047124677093	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
asparagine-tRNA ligase activity	5.29805946490109	bayes_pls_golite062009
aspartate-tRNA ligase activity	3.80084837437429	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	3.4145644216516	bayes_pls_golite062009
structural constituent of ribosome	2.90150581291897	bayes_pls_golite062009
glycine-tRNA ligase activity	2.61548498770105	bayes_pls_golite062009
structural molecule activity	2.54582212334303	bayes_pls_golite062009
proline-tRNA ligase activity	2.52223115725965	bayes_pls_golite062009
serine-tRNA ligase activity	2.46505535069103	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	bayes_pls_golite062009
catalytic activity	1.99372273395202	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
transcription regulator activity	1.67362693618722	bayes_pls_golite062009
binding	1.54403712698597	bayes_pls_golite062009
nucleic acid binding	1.48056625237411	bayes_pls_golite062009
DNA binding	1.44496421928708	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
transcription factor activity	0.825973629967327	bayes_pls_golite062009
sequence-specific DNA binding	0.77755643935497	bayes_pls_golite062009
ribonuclease activity	0.702449673647117	bayes_pls_golite062009
nuclease activity	0.29926900436997	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: